[BioC] Cannot upgrade bioconductor from 2.12 to 2.13
Zhu, Lihua (Julie)
Julie.Zhu at umassmed.edu
Thu Oct 24 16:03:36 CEST 2013
I had similar problem a week ago. Here is my work around.
First download the latest version of the BiocInstaller package, then
upgrades all currently installed packages to the latest repositories using
the following commands.
Hope this helps.
On 10/24/13 9:32 AM, "A M Torres, Hugo" <hugo.am.torres at usp.br> wrote:
> I am following the upgrade instructions here:
> But I keep getting biocLite 2.12 instead of 2.13 **no matter which mirror
> I choose.**
> Any clues?
> R version 3.0.2 (2013-09-25) -- "Frisbee Sailing"
> Copyright (C) 2013 The R Foundation for Statistical Computing
> Platform: x86_64-pc-linux-gnu (64-bit)
> R is free software and comes with ABSOLUTELY NO WARRANTY.
> You are welcome to redistribute it under certain conditions.
> Type 'license()' or 'licence()' for distribution details.
> Natural language support but running in an English locale
> R is a collaborative project with many contributors.
> Type 'contributors()' for more information and
> 'citation()' on how to cite R or R packages in publications.
> Type 'demo()' for some demos, 'help()' for on-line help, or
> 'help.start()' for an HTML browser interface to help.
> Type 'q()' to quit R.
> R Â» source("http://bioconductor.org/biocLite.R")
> Your Bioconductor is out-of-date, upgrade to version 2.13 by following
> at http://bioconductor.org/install.
> R Â» biocLite()
> BioC_mirror: http://www.bioconductor.org
> Using Bioconductor version 2.12 (BiocInstaller 1.10.4), R version 3.0.2.
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